Query psy12155
Match_columns 78
No_of_seqs 101 out of 297
Neff 5.5
Searched_HMMs 46136
Date Fri Aug 16 20:08:06 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12155.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12155hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02862 DDHD: DDHD domain; I 100.0 5.6E-35 1.2E-39 205.1 3.8 76 1-76 7-93 (227)
2 KOG2308|consensus 100.0 1.6E-31 3.5E-36 215.5 2.7 78 1-78 516-596 (741)
3 PF05191 ADK_lid: Adenylate ki 44.5 11 0.00024 19.8 0.7 13 26-38 3-15 (36)
4 TIGR03046 PS_II_psbV2 photosys 29.2 22 0.00047 24.6 0.4 35 40-74 16-50 (155)
5 PF02560 Cyanate_lyase: Cyanat 28.8 13 0.00028 23.0 -0.7 13 39-51 7-19 (73)
6 cd00559 Cyanase_C Cyanase C-te 27.6 26 0.00055 21.4 0.4 14 39-52 3-16 (69)
7 PF09737 Det1: De-etiolated pr 23.4 36 0.00077 27.0 0.7 17 32-48 376-392 (407)
8 KOG2558|consensus 22.7 42 0.00091 27.4 0.9 21 35-55 504-524 (532)
9 KOG1148|consensus 21.0 37 0.0008 28.8 0.3 14 37-50 401-414 (764)
10 KOG4342|consensus 20.7 26 0.00056 30.3 -0.6 28 28-55 236-263 (1078)
11 KOG3620|consensus 20.2 1E+02 0.0022 28.5 2.8 43 34-76 74-131 (1626)
12 PRK02866 cyanate hydratase; Va 20.1 34 0.00073 23.5 -0.0 13 39-51 81-93 (147)
No 1
>PF02862 DDHD: DDHD domain; InterPro: IPR004177 The DDHD domain is 180 residues long and contains four conserved residues that may form a metal binding site. The domain is named after these four residues. This pattern of conservation of metal binding residues is often seen in phosphoesterase domains. This domain is found in retinal degeneration B proteins, as well as a family of probable phospholipases.; GO: 0046872 metal ion binding
Probab=100.00 E-value=5.6e-35 Score=205.14 Aligned_cols=76 Identities=46% Similarity=0.970 Sum_probs=70.3
Q ss_pred CEEeecChHHHHHHhhCCccC-----------CCcccCCCcCceeeeccCCCccccccccccccccccCCCeeecccCCc
Q psy12155 1 MFFAFGSPVGMFVNVRGIDVL-----------GEEFEFPTCPKFYNIFHPFDPVAYRIEPLIVPAMEHVRPVQVPHHKGR 69 (78)
Q Consensus 1 nlF~~GSPlg~fl~lr~~~~~-----------~~~~~~p~c~~~yNIfhp~DPvAyRlEPli~~~~~~~~P~~iP~~~~~ 69 (78)
|||++|||||+||++||.... +..+.+|+|.|+||||||+|||||||||||+++|++++|+.||+++++
T Consensus 7 ~lF~~GSPlg~fl~lr~~~~~~~~~~~~~~~~~~~~~~p~~~~~yNifhp~DPvAyRlEPli~~~~~~~~P~~ip~~~~~ 86 (227)
T PF02862_consen 7 NLFLVGSPLGLFLTLRGAQIGARSASEYVTDEGSFYPCPACRRIYNIFHPYDPVAYRLEPLIDPRYADIKPVSIPRFKGG 86 (227)
T ss_pred eEEEeCCCHHHHHHHhCccccccccccccccccccccCCccccceeeeecCChHHHhHHHHHhhhhccCCCeeccccccc
Confidence 799999999999999998743 236889999999999999999999999999999999999999999999
Q ss_pred ceeeeee
Q psy12155 70 KRMHLGR 76 (78)
Q Consensus 70 ~r~h~~~ 76 (78)
++.|.++
T Consensus 87 ~~~~~~~ 93 (227)
T PF02862_consen 87 KLGHYES 93 (227)
T ss_pred Ccccccc
Confidence 9988765
No 2
>KOG2308|consensus
Probab=99.97 E-value=1.6e-31 Score=215.48 Aligned_cols=78 Identities=58% Similarity=1.135 Sum_probs=73.5
Q ss_pred CEEeecChHHHHHHhhCCccCCCc---ccCCCcCceeeeccCCCccccccccccccccccCCCeeecccCCcceeeeeec
Q psy12155 1 MFFAFGSPVGMFVNVRGIDVLGEE---FEFPTCPKFYNIFHPFDPVAYRIEPLIVPAMEHVRPVQVPHHKGRKRMHLGRK 77 (78)
Q Consensus 1 nlF~~GSPlg~fl~lr~~~~~~~~---~~~p~c~~~yNIfhp~DPvAyRlEPli~~~~~~~~P~~iP~~~~~~r~h~~~~ 77 (78)
|||++|||||+|+++||....+.. +.+|+|++|||||||+|||||||||||+++|+.++|+.||++++++|+|.+++
T Consensus 516 ~fFalGSPlgvFltlrG~d~~~~~~~~~~~p~C~~fyNIfHP~DPVAYRlEPlV~ke~~~i~Pv~Iph~r~~~~L~~~~~ 595 (741)
T KOG2308|consen 516 NFFALGSPLGVFLTLRGIDSYNELSRIVSRPACKRFYNIFHPTDPVAYRLEPLVVKEMAHIRPVKIPHHRGSKRLHSELK 595 (741)
T ss_pred heeeecCchhhhheecccccccccccccccccccchhhcCCCCCchheecccccchhhcccCceeccccCCccchhhhhc
Confidence 799999999999999998766665 88999999999999999999999999999999999999999999999999887
Q ss_pred C
Q psy12155 78 H 78 (78)
Q Consensus 78 ~ 78 (78)
+
T Consensus 596 ~ 596 (741)
T KOG2308|consen 596 E 596 (741)
T ss_pred c
Confidence 5
No 3
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=44.51 E-value=11 Score=19.83 Aligned_cols=13 Identities=31% Similarity=0.687 Sum_probs=10.4
Q ss_pred cCCCcCceeeecc
Q psy12155 26 EFPTCPKFYNIFH 38 (78)
Q Consensus 26 ~~p~c~~~yNIfh 38 (78)
.+++|..+||+..
T Consensus 3 ~C~~Cg~~Yh~~~ 15 (36)
T PF05191_consen 3 ICPKCGRIYHIEF 15 (36)
T ss_dssp EETTTTEEEETTT
T ss_pred CcCCCCCcccccc
Confidence 4689999999943
No 4
>TIGR03046 PS_II_psbV2 photosystem II cytochrome PsbV2. Members of this protein family are PsbV2, a protein closely related cytochrome c-550 (PsbV), a protein important to the water-splitting and oxygen-evolving activity of photosystem II. Mutant studies in Thermosynechococcus elongatus showed PsbV2 can partially replace PsbV, from which it appears to have arisen first by duplication, then by intergenic recombination with a different gene.
Probab=29.22 E-value=22 Score=24.64 Aligned_cols=35 Identities=23% Similarity=0.422 Sum_probs=28.8
Q ss_pred CCccccccccccccccccCCCeeecccCCcceeee
Q psy12155 40 FDPVAYRIEPLIVPAMEHVRPVQVPHHKGRKRMHL 74 (78)
Q Consensus 40 ~DPvAyRlEPli~~~~~~~~P~~iP~~~~~~r~h~ 74 (78)
.+|+|.+++|.|..-.+.-.||.||--..|.-.-+
T Consensus 16 ~~~~~~~~d~yv~~~l~~~~~~~~~~~~~g~~~~~ 50 (155)
T TIGR03046 16 ASPVAARVDPYVKQYLRVTGPVELPLDAQGELKTF 50 (155)
T ss_pred CCHHHhccChHHHHHhccCCceEeecCCCCCeEEe
Confidence 45899999999998887889999998877665544
No 5
>PF02560 Cyanate_lyase: Cyanate lyase C-terminal domain; InterPro: IPR003712 Some bacteria can overcome the toxicity of environmental cyanate by hydrolysis of cyanate. This reaction is catalyzed by cyanate lyase (also known as cyanase) []. Cyanate lyase is found in bacteria and plants and catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. The cyanate lyase monomer is composed of two domains. The N-terminal domain shows structural similarity to the DNA-binding alpha-helix bundle motif. The C-terminal domain has an 'open fold' with no structural homology to other proteins. The dimer structure reveals the C-terminal domains to be intertwined, and the decamer is formed by a pentamer of these dimers. The active site of the enzyme is located between dimers and is comprised of residues from four adjacent subunits of the homodecamer []. ; GO: 0008824 cyanate hydratase activity, 0009439 cyanate metabolic process; PDB: 2IV1_B 2IUO_A 2IVQ_B 1DW9_A 1DWK_E 2IVG_G 2IU7_J 2IVB_A.
Probab=28.77 E-value=13 Score=22.95 Aligned_cols=13 Identities=38% Similarity=0.940 Sum_probs=8.3
Q ss_pred CCCcccccccccc
Q psy12155 39 PFDPVAYRIEPLI 51 (78)
Q Consensus 39 p~DPvAyRlEPli 51 (78)
|.||+-||+--.+
T Consensus 7 ptDP~iYR~yE~v 19 (73)
T PF02560_consen 7 PTDPLIYRLYEIV 19 (73)
T ss_dssp --SHHHHHHHHHH
T ss_pred CCCCeEeeeehhh
Confidence 6899999985443
No 6
>cd00559 Cyanase_C Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the toxicity of environmental cyanate and to use cyanate as a source of nitrogen for growth. This enzyme is a homodecamer, formed by five dimers. Each monomer is composed of two domains, an N-terminal helix-turn-helix and this structurally unique C-terminal domain.
Probab=27.58 E-value=26 Score=21.41 Aligned_cols=14 Identities=36% Similarity=0.795 Sum_probs=10.6
Q ss_pred CCCccccccccccc
Q psy12155 39 PFDPVAYRIEPLIV 52 (78)
Q Consensus 39 p~DPvAyRlEPli~ 52 (78)
|+||+-||+--.+.
T Consensus 3 ptDP~iYRlyE~v~ 16 (69)
T cd00559 3 PTDPLIYRFYEIVQ 16 (69)
T ss_pred CCCceeeehHHHHH
Confidence 78999999865443
No 7
>PF09737 Det1: De-etiolated protein 1 Det1; InterPro: IPR019138 This entry represents Det1 family proteins []. Det1 (de-etiolated-1) is an essential negative regulator of plant light responses, and it is a component of the Arabidopsis CDD complex containing DDB1 and COP10 ubiquitin E2 variant. Mammalian Det1 forms stable DDD-E2 complexes, consisting of DDB1, DDA1 (DET1, DDB1 Associated 1), is a member of the UBE2E group of canonical ubiquitin conjugating enzymes and modulates Cul4A function [].
Probab=23.35 E-value=36 Score=26.99 Aligned_cols=17 Identities=35% Similarity=0.714 Sum_probs=12.8
Q ss_pred ceeeeccCCCccccccc
Q psy12155 32 KFYNIFHPFDPVAYRIE 48 (78)
Q Consensus 32 ~~yNIfhp~DPvAyRlE 48 (78)
-+==+|||++|.|--+-
T Consensus 376 ~vaf~FHP~~PFaiSvq 392 (407)
T PF09737_consen 376 LVAFTFHPFEPFAISVQ 392 (407)
T ss_pred EEEEEcCCCCCeEEEEE
Confidence 34458999999997654
No 8
>KOG2558|consensus
Probab=22.70 E-value=42 Score=27.37 Aligned_cols=21 Identities=48% Similarity=0.899 Sum_probs=15.8
Q ss_pred eeccCCCcccccccccccccc
Q psy12155 35 NIFHPFDPVAYRIEPLIVPAM 55 (78)
Q Consensus 35 NIfhp~DPvAyRlEPli~~~~ 55 (78)
=||||.||.|--+--...+.|
T Consensus 504 F~fHPf~PlaISIQ~t~~p~y 524 (532)
T KOG2558|consen 504 FIFHPFDPLAISIQKTMNPSY 524 (532)
T ss_pred EeccCCCceeeeeecccCCce
Confidence 389999999988766655443
No 9
>KOG1148|consensus
Probab=20.97 E-value=37 Score=28.82 Aligned_cols=14 Identities=43% Similarity=0.605 Sum_probs=10.3
Q ss_pred ccCCCccccccccc
Q psy12155 37 FHPFDPVAYRIEPL 50 (78)
Q Consensus 37 fhp~DPvAyRlEPl 50 (78)
+...||||||+-=.
T Consensus 401 p~m~DlvayRik~~ 414 (764)
T KOG1148|consen 401 PQMWDLVAYRIKNV 414 (764)
T ss_pred ccccccceeeeecC
Confidence 34579999998543
No 10
>KOG4342|consensus
Probab=20.68 E-value=26 Score=30.26 Aligned_cols=28 Identities=21% Similarity=0.501 Sum_probs=21.7
Q ss_pred CCcCceeeeccCCCcccccccccccccc
Q psy12155 28 PTCPKFYNIFHPFDPVAYRIEPLIVPAM 55 (78)
Q Consensus 28 p~c~~~yNIfhp~DPvAyRlEPli~~~~ 55 (78)
-.|+++-|+|||.||..++.---+.++|
T Consensus 236 q~~N~~mN~fdPnd~st~~~cr~La~~f 263 (1078)
T KOG4342|consen 236 QTANQMMNVFDPNDPSTFPVCRALASRF 263 (1078)
T ss_pred HHHHHHHhccCCCChhhhHHHHHHHHHH
Confidence 3599999999999999888655454444
No 11
>KOG3620|consensus
Probab=20.25 E-value=1e+02 Score=28.45 Aligned_cols=43 Identities=21% Similarity=0.375 Sum_probs=28.8
Q ss_pred eeeccCCCcccccccccccccc---ccCCC---eeecc---------cCCcceeeeee
Q psy12155 34 YNIFHPFDPVAYRIEPLIVPAM---EHVRP---VQVPH---------HKGRKRMHLGR 76 (78)
Q Consensus 34 yNIfhp~DPvAyRlEPli~~~~---~~~~P---~~iP~---------~~~~~r~h~~~ 76 (78)
|-++--+|+.-|||.|++--+. +.+.| +..|+ |..|+-+|+||
T Consensus 74 y~vqG~g~~nPYRl~Pf~G~r~PmNss~sp~I~i~NPh~~plqi~EiysSGG~~hlEL 131 (1626)
T KOG3620|consen 74 YAVQGEGSENPYRLKPFVGIRAPMNSSLSPEIHIYNPHERPLQILEIYSSGGEFHLEL 131 (1626)
T ss_pred EEEeccCCCCccccccccceecccccccCCceEecCCccCceEEEEEeccCccEEEec
Confidence 5667778999999999985432 23322 22233 45588999987
No 12
>PRK02866 cyanate hydratase; Validated
Probab=20.12 E-value=34 Score=23.51 Aligned_cols=13 Identities=38% Similarity=0.894 Sum_probs=10.2
Q ss_pred CCCcccccccccc
Q psy12155 39 PFDPVAYRIEPLI 51 (78)
Q Consensus 39 p~DPvAyRlEPli 51 (78)
|+||+-||+--.+
T Consensus 81 ptdP~iYR~yE~v 93 (147)
T PRK02866 81 PTDPLIYRFYEMV 93 (147)
T ss_pred CCCcHHHHHHHHH
Confidence 7899999985443
Done!